genome.fa.s10.2.7.7.80.10.50.1000.117.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: At_chr6
Parameters: 2 7 7 80 10 50 1000
Length:  56482370

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   

This is table  117  of  172  ( 20562 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38914367--38914493	63	2.0	63	95	0	227	17	25	17	40	1.91
38930193--38930247	27	2.0	27	92	0	92	40	18	16	25	1.91
38939536--38939580	22	2.0	22	82	4	54	44	6	0	48	1.29
38940194--38940219	13	2.0	13	100	0	52	38	0	30	30	1.58
38942810--38942902	49	1.9	49	95	2	170	44	2	16	37	1.60
38952427--38952456	5	6.0	5	92	0	51	3	0	36	60	1.14
38954888--38954982	27	3.6	27	87	7	140	33	21	26	18	1.96
38956331--38956405	26	2.9	26	97	0	141	37	28	4	30	1.75
38969815--38969862	17	2.8	17	75	12	53	41	14	0	43	1.45
38970319--38970382	32	2.0	32	96	0	119	40	17	17	25	1.90
38983763--38983868	51	2.1	51	84	7	135	46	14	9	30	1.76
39007055--39007084	14	2.1	14	93	0	51	40	16	13	30	1.87
39015457--39015511	20	2.8	20	80	5	58	41	12	12	32	1.81
39018464--39018494	10	3.1	10	95	0	53	74	6	0	19	1.03
39018461--39018492	15	2.1	15	94	0	55	71	9	0	18	1.12
39019322--39019354	14	2.5	14	90	9	52	48	0	12	39	1.40
39019940--39020020	34	2.4	34	80	0	99	33	4	22	39	1.75
39028339--39028449	27	4.2	26	85	7	134	37	21	23	17	1.93
39029589--39029867	140	2.0	139	97	0	522	39	5	34	19	1.76
39030007--39030077	24	3.0	24	95	0	124	25	38	1	35	1.65
39032150--39032185	19	1.9	18	88	5	54	58	0	5	36	1.22
39033053--39033132	38	2.1	38	88	0	115	42	6	17	33	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39036405--39036452	21	2.4	19	83	10	60	22	10	2	64	1.35
39046084--39046195	42	2.7	42	90	0	170	23	31	25	19	1.98
39052296--39052357	31	2.0	31	96	0	115	24	29	20	25	1.99
39055128--39055236	35	3.1	35	97	0	200	47	4	6	41	1.49
39058502--39058526	13	1.9	13	100	0	50	24	4	8	64	1.38
39069225--39069306	31	2.6	31	86	0	110	20	19	14	45	1.85
39082214--39082260	20	2.3	20	96	0	85	17	21	23	38	1.93
39090199--39090278	25	3.2	26	79	10	71	36	21	22	20	1.95
39090213--39090284	25	3.0	25	81	4	85	37	19	20	22	1.94
39093606--39093718	56	2.0	56	92	0	190	39	17	10	31	1.84
39098595--39098702	54	2.0	54	94	0	189	37	4	11	47	1.60
39103619--39103666	22	2.2	22	100	0	96	43	16	10	29	1.81
39107163--39107192	15	2.0	15	100	0	60	40	13	0	46	1.43
39129653--39129691	19	2.1	19	85	0	51	23	2	5	69	1.21
39129651--39129724	27	2.6	28	74	4	78	27	1	5	66	1.22
39129634--39129731	36	2.7	37	83	10	107	26	2	5	66	1.23
39130761--39130786	11	2.4	11	100	0	52	73	7	0	19	1.07
39137757--39137792	3	12.0	3	100	0	72	33	0	0	66	0.92
39148544--39148585	19	2.2	19	86	4	57	57	0	0	42	0.99
39148554--39148629	26	2.9	27	79	15	95	61	0	0	38	0.96
39148560--39148626	27	2.5	26	81	13	75	62	0	0	37	0.95
39148906--39148934	13	2.1	14	93	6	51	27	0	0	72	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39149524--39149591	35	1.9	35	84	0	91	35	7	11	45	1.69
39150507--39150535	14	2.0	15	93	6	51	82	3	6	6	0.93
39155697--39155756	30	2.0	30	100	0	120	30	13	6	50	1.67
39163520--39163553	15	2.3	15	90	5	52	70	0	5	23	1.09
39164483--39164527	20	2.2	20	84	0	54	66	2	4	26	1.22
39166156--39166240	37	2.3	37	93	0	143	62	1	2	34	1.16
39166157--39166252	18	5.3	18	75	5	77	63	1	3	32	1.17
39170440--39170501	5	12.6	5	83	10	74	19	0	3	77	0.90
39170452--39170507	29	1.9	29	92	7	96	25	0	0	75	0.81
39171339--39171390	16	3.1	16	73	15	52	28	3	5	61	1.37
39174036--39174079	20	2.2	20	92	8	72	0	13	0	86	0.57
39174036--39174087	23	2.3	23	87	9	79	1	11	0	86	0.65
39174231--39174446	118	1.8	118	94	0	387	30	31	15	22	1.95
39175227--39175349	42	2.9	42	84	3	140	27	12	29	30	1.93
39175442--39175494	8	6.6	8	91	8	74	73	0	0	26	0.83
39175444--39175504	23	2.7	22	83	14	72	75	0	0	24	0.80
39182505--39182556	5	9.6	5	87	8	59	23	0	1	75	0.91
39186999--39187336	169	2.0	169	87	2	482	34	25	12	27	1.92
39188335--39188397	27	2.3	27	91	0	99	44	25	9	20	1.82
39194841--39194900	31	1.9	31	86	0	84	55	11	5	28	1.57
39200714--39201134	211	2.0	211	96	0	770	33	14	22	30	1.93
39204510--39204633	39	3.2	39	90	1	176	25	22	29	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39206098--39206135	19	2.0	19	100	0	76	36	21	5	36	1.76
39206949--39207222	121	2.3	119	88	3	392	46	15	11	26	1.79
39212915--39212945	12	2.7	11	95	5	53	64	0	0	35	0.94
39212976--39213010	17	2.1	17	89	10	54	65	0	8	25	1.21
39216007--39216045	21	1.9	21	84	5	53	35	2	17	43	1.63
39216342--39216384	21	2.0	21	86	8	61	30	16	25	27	1.97
39216638--39216680	22	2.0	22	86	4	61	30	2	23	44	1.66
39216678--39216939	121	2.1	124	87	5	372	37	17	16	27	1.92
39220300--39220388	27	3.3	27	75	9	76	38	17	21	22	1.94
39220831--39220915	27	3.2	26	85	6	107	34	11	17	36	1.86
39221121--39221156	18	2.0	18	100	0	72	33	11	16	38	1.84
39222254--39222317	24	2.7	24	72	13	60	29	29	3	37	1.73
39223393--39223423	14	2.2	14	94	0	53	61	12	0	25	1.32
39224340--39224385	18	2.5	19	75	10	51	63	4	0	32	1.14
39224572--39224625	21	2.6	21	84	0	63	37	3	24	35	1.73
39224896--39224958	29	2.1	30	80	13	69	34	15	15	33	1.90
39238660--39238689	15	2.0	15	100	0	60	20	0	26	53	1.46
39238791--39238833	17	2.5	17	85	7	52	37	4	2	55	1.33
39245840--39245880	17	2.4	18	80	12	50	34	0	12	53	1.38
39246897--39246921	13	1.9	13	100	0	50	40	20	8	32	1.81
39247625--39247662	15	2.4	17	82	13	53	47	7	0	44	1.32
39252775--39252884	33	3.3	33	77	6	80	24	23	18	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39262147--39262726	78	7.6	75	88	7	722	32	21	18	27	1.97
39262583--39262720	75	1.9	73	92	3	222	31	19	16	32	1.94
39262146--39262720	232	2.5	225	85	7	737	32	21	18	28	1.97
39274762--39274826	22	2.8	23	78	17	71	52	7	1	38	1.40
39274769--39274824	25	2.4	23	82	8	69	55	7	0	37	1.27
39274872--39274917	21	2.1	23	84	8	60	50	6	4	39	1.48
39276484--39276508	9	2.8	9	100	0	50	12	0	16	72	1.13
39276942--39277596	78	8.7	74	84	9	751	32	21	17	27	1.96
39276942--39277583	140	4.3	145	86	7	704	31	22	17	28	1.97
39277439--39277583	75	1.9	75	87	5	213	31	18	17	31	1.95
39277061--39277583	159	3.4	150	84	7	629	32	21	17	27	1.97
39281375--39281415	11	3.7	11	100	0	82	34	19	26	19	1.96
39285411--39285492	39	2.2	36	78	10	83	54	2	1	41	1.21
39285950--39286036	33	2.6	34	77	18	92	60	1	0	37	1.04
39288298--39288344	2	24.0	2	86	4	69	48	0	0	51	1.00
39289171--39289213	9	4.8	9	82	0	59	25	6	20	46	1.76
39289575--39289617	9	4.8	9	82	0	59	25	6	20	46	1.76
39288849--39289656	404	2.0	404	99	0	1607	41	14	10	34	1.79
39290981--39291014	8	4.0	8	92	7	50	38	2	0	58	1.13
39292855--39292894	21	2.0	21	90	5	64	57	0	10	32	1.32
39293503--39293552	22	2.3	22	79	6	57	70	8	12	10	1.35
39299766--39299805	14	2.7	15	84	7	55	82	0	0	17	0.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39299766--39299805	10	4.1	9	90	9	53	82	0	0	17	0.67
39300346--39300605	143	1.8	143	80	6	321	31	11	11	45	1.76
39301161--39301186	13	2.0	13	100	0	52	30	0	0	69	0.89
39301169--39301229	29	2.2	29	83	16	76	37	0	0	62	0.96
39302051--39302120	27	2.6	27	86	0	95	22	28	28	20	1.98
39305502--39305770	146	1.8	147	83	3	362	36	20	21	21	1.96
39311288--39311329	17	2.5	17	80	0	57	57	2	4	35	1.33
39321931--39321955	13	1.9	13	100	0	50	52	0	0	48	1.00
39322326--39322397	14	4.9	14	74	15	65	54	1	4	40	1.28
39337100--39337599	64	7.8	64	76	8	424	48	10	16	25	1.77

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172